Complete genome sequence of Xanthomonas phage M29, a new member of Foxunavirus isolated in the Czech Republic.
Bacteriophage
Biocontrol
Xanthomonas campestris pv. campestris whole-genome sequence
Journal
Virus genes
ISSN: 1572-994X
Titre abrégé: Virus Genes
Pays: United States
ID NLM: 8803967
Informations de publication
Date de publication:
Dec 2023
Dec 2023
Historique:
received:
19
06
2023
accepted:
17
08
2023
medline:
24
11
2023
pubmed:
5
9
2023
entrez:
4
9
2023
Statut:
ppublish
Résumé
The newly discovered Xanthomonas phage M29 (Xp M29) is the first lytic phage infecting Xanthomonas campestris pv. campestris (Xcc) that was isolated from cabbage leaves in the Czech Republic. The phage consists of icosahedral head approximately 60 nm in diameter and a probably contractile tail of 170 nm. The complete genome size was 42 891 bp, with a G + C content of 59.6%, and 69 ORFs were predicted on both strands. Pairwise nucleotide comparison showed the highest similarity with the recently described Xanthomonas phage FoX3 (91.2%). Bacteriophage Xp M29 has a narrow host range infecting 5 out of 21 isolates of Xcc. Xp M29 is a novel species in a newly formed genus Foxunavirus assigned directly to the class Caudoviricetes.
Identifiants
pubmed: 37667026
doi: 10.1007/s11262-023-02027-6
pii: 10.1007/s11262-023-02027-6
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
874-877Subventions
Organisme : Internal Grant Agency of MENDELU
ID : IGA-ZF/2021-SI1002
Organisme : Technology Agency of the Czech Republic
ID : RVO60077344
Informations de copyright
© 2023. The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature.
Références
Mansfield J, Genin S, Magori S, Citovsky V, Sriariyanum M, Ronald P, Dow M, Verdier V, Beer SV, Machado MA, Toth I, Salmond G, Foster GD (2012) Top 10 plant pathogenic bacteria in molecular plant pathology. Mol Plant Pathol 13:614–629. https://doi.org/10.1111/j.1364-3703.2012.00804.x
doi: 10.1111/j.1364-3703.2012.00804.x
pubmed: 22672649
pmcid: 6638704
CSO (2020) Table: area, per hectare yield and harvest of potatoes, vegetables, and strawberries, including households. Czech Statistical Office. https://vdb.czso.cz/vdbvo2/faces/en/index.jsf?page=vystup-objekt-vyhledavani&vyhltext=zelenina&bkvt=emVsZW5pbmE.&katalog=all&pvo=ZEM02L/ . Accessed 24 Jan 2023
Vicente JG, Holub EB (2013) Xanthomonas campestris pv. campestris (cause of black rot of crucifers) in the genomic era is still a worldwide threat to brassica crops. Mol Plant Pathol 14:2–18. https://doi.org/10.1111/j.1364-3703.2012.00833.x
doi: 10.1111/j.1364-3703.2012.00833.x
pubmed: 23051837
Taylor JD, Conway J, Roberts SJ, Astley D, Vicente JG (2002) Sources and origin of resistance to Xanthomonas campestris pv. campestris in Brassica genomes. Phytopathology 92:105–111. https://doi.org/10.1094/PHYTO.2002.92.1.105
doi: 10.1094/PHYTO.2002.92.1.105
pubmed: 18944146
Gazdik F, Magnus S, Roberts SJ, Baranski R, Cechova J, Pokluda R, Eichmeier A, Grzebelus D, Baranek M (2021) Persistence of Xanthomonas campestris pv. campestris in field soil in Central Europe. Microorganisms 9:591. https://doi.org/10.3390/microorganisms9030591
doi: 10.3390/microorganisms9030591
pubmed: 33805636
pmcid: 8001034
Jones JB, Vallad GE, Iriarte FB, Obradovic A, Wernsing MH, Jackson LE, Balogh B, Hong JC, Momol MT (2012) Considerations for using bacteriophages for plant disease control. Bacteriophage 2:e23857–e23857. https://doi.org/10.4161/bact.23857
doi: 10.4161/bact.23857
Gasic K, Kuzmanovic N, Ivanovic M, Prokic A, Sevic M, Obradovic A (2018) Complete genome of the Xanthomonas euvesicatoria specific bacteriophage K Phi 1: its survival and potential in control of pepper bacterial Spot. Front Microbiol 9:2021. https://doi.org/10.3389/fmicb.2018.02021
doi: 10.3389/fmicb.2018.02021
pubmed: 30210484
pmcid: 6123377
Balogh B, Jones JB, Momol MT, Olson SM, Obradovic A, King P, Jackson LE (2003) Improved efficacy of newly formulated bacteriophages for management of bacterial spot on tomato. Plant Dis 87:949–954. https://doi.org/10.1094/PDIS.2003.87.8.949
doi: 10.1094/PDIS.2003.87.8.949
pubmed: 30812801
Flaherty JE, Jones JB, Harbaugh BK, Somodi GC, Jackson LE (2000) Control of bacterial spot on tomato in the greenhouse and field with H-mutant bacteriophages. HortScience 35:882–884. https://doi.org/10.21273/HORTSCI.35.5.882
doi: 10.21273/HORTSCI.35.5.882
Obradovic A, Mavridis A, Rudolph K, Janse JD, Arsenijevic M, Jones JB, Minsavage GV, Wang JF (2004) Characterization and PCR-based typing of Xanthomonas campestris pv. vesicatoria from peppers and tomatoes in Serbia. Eur J Plant Pathol 110:285–292. https://doi.org/10.21273/HORTSCI.35.5.882
doi: 10.21273/HORTSCI.35.5.882
Lang JM, Gent DH, Schwartz HF (2007) Management of Xanthomonas leaf blight of onion with bacteriophages and a plant activator. Plant Dis 91:871–878. https://doi.org/10.1094/PDIS-91-7-0871
doi: 10.1094/PDIS-91-7-0871
pubmed: 30780399
Nga NTT, Tran TN, Holtappels D, Kim Ngan NL, Hao NP, Vallino M, Tien DTK, Khanh-Pham NH, Lavigne R, Kamei K, Wagemans J, Jones JB (2021) Phage biocontrol of bacterial leaf blight disease on welsh onion caused by Xanthomonas axonopodis pv. allii. Antibiotics (Basel) 10:517. https://doi.org/10.3390/antibiotics10050517
doi: 10.3390/antibiotics10050517
pubmed: 34062921
Ranjani P, Gowthami Y, Gnanamanickam SS, Palani P (2018) Bacteriophages: a new weapon for the control of bacterial blight disease in rice caused by Xanthomonas oryzae. Microbiol Biotechnol Lett 46:346–359. https://doi.org/10.4014/mbl.1807.07009
doi: 10.4014/mbl.1807.07009
Balogh B, Canteros BI, Stall RE, Jones JB (2008) Control of citrus canker and citrus bacterial spot with bacteriophages. Plant Dis 92:1048–1052. https://doi.org/10.1094/PDIS-92-7-1048
doi: 10.1094/PDIS-92-7-1048
pubmed: 30769518
Dömötör D, Frank T, Rákhely G, Doffkay Z, Schneider G, Kovács T (2016) Comparative analysis of two bacteriophages of Xanthomonas arboricola pv. juglandis. Infect Genet Evol 43:371–377. https://doi.org/10.1016/j.meegid.2016.06.011
doi: 10.1016/j.meegid.2016.06.011
pubmed: 27275846
Petrzik K, Lukavsky J, Koloniuk I (2021) Novel virus on filamentous Arthronema africanum cyanobacterium. Microb Ecol 81:454–459. https://doi.org/10.1007/s00248-020-01599-2
doi: 10.1007/s00248-020-01599-2
pubmed: 32901386
Zimmermann L, Stephens A, Nam SZ, Rau D, Kubler J, Lozajic M, Gabler F, Soding J, Lupas AN, Alva V (2018) A completely reimplemented MPI bioinformatics toolkit with a new HHpred server at its core. JMB 430:2237–2243. https://doi.org/10.1016/j.jmb.2017.12.007
doi: 10.1016/j.jmb.2017.12.007
Rohwer F, Edwards R (2002) The phage proteomic tree: a genome-based taxonomy for phage. J Bacteriol 184:4529–4535. https://doi.org/10.1128/jb.184.16.4529-4535.2002
doi: 10.1128/jb.184.16.4529-4535.2002
pubmed: 12142423
pmcid: 135240
Moraru C, Varsani A, Kropinski AM (2020) VIRIDIC—a novel tool to calculate the intergenomic similarities of prokaryote-infecting viruses. Viruses. https://doi.org/10.3390/v12111268
doi: 10.3390/v12111268
pubmed: 33172115
pmcid: 7694805
Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, Formsma K, Gerdes S, Glass EM, Kubal M, Meyer F, Olsen GJ, Olson R, Osterman AL, Overbeek RA, McNeil LK, Paarmann D, Paczian T, Parrello B, Pusch GD, Reich C, Stevens R, Vassieva O, Vonstein V, Wilke A, Zagnitko O (2008) The RAST server: rapid annotations using subsystems technology. BMC Genom 9:75. https://doi.org/10.1186/1471-2164-9-75
doi: 10.1186/1471-2164-9-75
Sullivan MJ, Petty NK, Beatson SA (2011) Easyfig: a genome comparison visualizer. Bioinformatics 27:1009–1010. https://doi.org/10.1093/bioinformatics/btr039
doi: 10.1093/bioinformatics/btr039
pubmed: 21278367
pmcid: 3065679